1C3T | pdb_00001c3t

ROTAMER STRAIN AS A DETERMINANT OF PROTEIN STRUCTURAL SPECIFICITY

PDB DOI: https://doi.org/10.2210/pdb1C3T/pdb
BMRB: 4663

Classification: DE NOVO PROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21
Mutation(s): Yes

Deposited: 1999-07-28 Released: 1999-08-20
Deposition Author(s): Lazar, G.A., Johnson, E.C., Desjarlais, J.R., Handel, T.M.

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 30
Conformers Submitted: 20
Selection Criteria: structures with the lowest energy

wwPDB Validation 3D Report Full Report

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This is version 1.4 of the entry. See complete history.

Literature

Rotamer strain as a determinant of protein structural specificity.

Lazar, G.A., Johnson, E.C., Desjarlais, J.R., Handel, T.M.

(1999) Protein Sci 8: 2598-2610

PubMed: 10631975 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1110/ps.8.12.2598
Primary Citation Related Structures:
1C3T

PubMed Abstract:
We present direct evidence for a change in protein structural specificity due to hydrophobic core packing. High resolution structural analysis of a designed core variant of ubiquitin reveals that the protein is in slow exchange between two conformations. Examination of side-chain rotamers indicates that this dynamic response and the lower stability of the protein are coupled to greater strain and mobility in the core. The results suggest that manipulating the level of side-chain strain may be one way of fine tuning the stability and specificity of proteins.

Organizational Affiliation

Department of Molecular and Cell Biology, University of California, Berkeley 94720, USA.

Macromolecule Content

Total Structure Weight: 8.58 kDa
Atom Count: 602
Modeled Residue Count: 76
Deposited Residue Count: 76
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (1D8 UBIQUITIN)	A	76	Homo sapiens	Mutation(s): 8
UniProt & NIH Common Fund Data Resources
Find proteins for P0CG48 (Homo sapiens) Explore P0CG48 Go to UniProtKB: P0CG48
PHAROS: P0CG48 GTEx: ENSG00000150991
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0CG48
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: SOLUTION NMR
Conformers Calculated: 30
Conformers Submitted: 20
Selection Criteria: structures with the lowest energy

Structure Validation

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Entry History

Deposition Data

Released Date: 1999-08-20

Deposition Author(s):

Desjarlais, J.R.

Revision History (Full details and data files)

Version 1.0: 1999-08-20
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2018-03-14
Changes: Database references, Derived calculations
Version 1.4: 2024-04-10
Changes: Data collection, Database references

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.